BtaALTA0026300-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000001352 | SDCCAG3
Description
Bos taurus serologically defined colon cancer antigen 3 (SDCCAG3), mRNA. [Source:RefSeq mRNA;Acc:NM_001046140]
Coordinates
chr11:103916185-103916652:-
Coord C1 exon
chr11:103916436-103916652
Coord A exon
NA
Coord C2 exon
chr11:103916185-103916296
Length
0 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
GCCGGTCTTGTCTCCCCCAGCTA
3' ss Score
8.48
Exon sequences
Seq C1 exon
GAGCGCAAGCAGCGGCCAGCGGCTCGGAGCGGCGGCCGAGCGGCGGGCGACGGAGGCGGGCGACTCGGGCCGCGGCCGGGACGGAGCCGGGGCCATGGAGCCGCCGCTGCCGGGCTGAAGAGGGCTGGCGCCGCGCAGCCCGCGGCGATGGCGGGCTACGCGCGCCGCCCGGGCGTCACCCCGCTGTCCCGGGCCCGGAGCCTCGTCATTCCGGACG
Seq A exon
NA
Seq C2 exon
CTAGACTGTGAGCGCCCCCCAGCCAGGGACCTGGAGTCCCACTTCTTCGGCATTCGGCCGACGTTTATGTGCTATGTGCCCAGTCCGGTGCTAGCTTCCGTGGGAGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001352-0-1,0-0-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.417 A=NA C2=0.098
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
ENSBTAT00000055628fB6187
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCCTCGTCATTCCGGA
R:
TCTCCCACGGAAGCTAGCAC
Band lengths:
128-166
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development